Variant report

Variant	rs7907898
Chromosome Location	chr10:49407854-49407855
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:49402150..49404815-chr10:49405998..49407981,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PTPN20C-2	chr10:49407711-49407889	ENSG00000248306.1

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs11101258	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11101259	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11101262	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11101263	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11594394	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12249222	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12250185	0.82[AMR][1000 genomes]
rs12256625	0.82[AMR][1000 genomes]
rs12263780	0.82[AMR][1000 genomes]
rs1367023	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1367024	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17010513	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17697168	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17697186	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17697300	0.94[ASN][1000 genomes]
rs17769912	0.94[ASN][1000 genomes]
rs17769978	0.94[ASN][1000 genomes]
rs17769990	0.94[ASN][1000 genomes]
rs1864345	0.82[AMR][1000 genomes]
rs3906617	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4491171	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4838578	0.94[ASN][1000 genomes]
rs4838580	0.82[AMR][1000 genomes]
rs4838582	0.82[AMR][1000 genomes]
rs56036047	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57786719	0.91[ASN][1000 genomes]
rs61840036	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61840037	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61840038	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6537556	0.82[AMR][1000 genomes]
rs7897122	0.90[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs7906257	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv497860	chr10:49002272-49431037	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv831864	chr10:49299274-49450299	Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv895366	chr10:49299274-49576454	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv895367	chr10:49333754-49491047	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv895368	chr10:49381635-49551560	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv467190	chr10:49402084-49576878	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	nsv550811	chr10:49402084-49576878	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:49396000-49420800	Weak transcription	Brain Anterior Caudate	brain
2	chr10:49407400-49408200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr10:49407600-49408000	Active TSS	Adipose Nuclei	Adipose
4	chr10:49407600-49408000	Active TSS	Pancreatic Islets	Pancreatic Islet
5	chr10:49407600-49408000	Enhancers	Dnd41	blood
6	chr10:49407600-49408000	Active TSS	Monocytes-CD14+_RO01746	blood
7	chr10:49407600-49408200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr10:49407600-49408400	Enhancers	Primary monocytes fromperipheralblood	blood
9	chr10:49407800-49408000	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr10:49407800-49408000	Bivalent/Poised TSS	K562	blood
11	chr10:49407800-49408000	Flanking Active TSS	NHDF-Ad	bronchial
12	chr10:49407800-49408200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr10:49407800-49408200	Active TSS	Osteobl	bone

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